miRNA display CGI


Results 1 - 20 of 28 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
11968 3' -58.1 NC_003278.1 + 19446 0.66 0.43829
Target:  5'- -gCCUGUUgcgcgGCCAGcgcGGuGCUGACCuGCu -3'
miRNA:   3'- ugGGAUAG-----CGGUCa--CC-CGACUGGuCG- -5'
11968 3' -58.1 NC_003278.1 + 30244 0.66 0.435329
Target:  5'- gGCCCUGgucgacgcgcugCGCCuGGUGGugccGCUGuccgagcACCAGCu -3'
miRNA:   3'- -UGGGAUa-----------GCGG-UCACC----CGAC-------UGGUCG- -5'
11968 3' -58.1 NC_003278.1 + 21739 0.66 0.428463
Target:  5'- gGCCUg--CGCCGG-GGcGCUGgcGCCgAGCa -3'
miRNA:   3'- -UGGGauaGCGGUCaCC-CGAC--UGG-UCG- -5'
11968 3' -58.1 NC_003278.1 + 31204 0.66 0.428463
Target:  5'- gGCCCgc-CGCCAGgcugcuccGGGCUG-CgAGUg -3'
miRNA:   3'- -UGGGauaGCGGUCa-------CCCGACuGgUCG- -5'
11968 3' -58.1 NC_003278.1 + 12902 0.66 0.428463
Target:  5'- gGCUC--UCGCCAacauGCUGGCCAGCg -3'
miRNA:   3'- -UGGGauAGCGGUcaccCGACUGGUCG- -5'
11968 3' -58.1 NC_003278.1 + 26820 0.66 0.418767
Target:  5'- -aCCUGUaCGCCAG-GGGCgucGCCAccGCc -3'
miRNA:   3'- ugGGAUA-GCGGUCaCCCGac-UGGU--CG- -5'
11968 3' -58.1 NC_003278.1 + 9085 0.66 0.409206
Target:  5'- cGCCCUggaGUCgGCCAGUugGGGCgccuuCCAGa -3'
miRNA:   3'- -UGGGA---UAG-CGGUCA--CCCGacu--GGUCg -5'
11968 3' -58.1 NC_003278.1 + 19525 0.66 0.398847
Target:  5'- gGCCCgguuguaGUCGCgGGUgagcgcgcgggugGGGUUG-CCGGCg -3'
miRNA:   3'- -UGGGa------UAGCGgUCA-------------CCCGACuGGUCG- -5'
11968 3' -58.1 NC_003278.1 + 8045 0.66 0.390498
Target:  5'- uGCCCUGcucggCGCCu---GGCUGGCCAccgGCa -3'
miRNA:   3'- -UGGGAUa----GCGGucacCCGACUGGU---CG- -5'
11968 3' -58.1 NC_003278.1 + 2315 0.66 0.390498
Target:  5'- cGCCgCUGUCuaUGGagGGGCUGGCCaAGUc -3'
miRNA:   3'- -UGG-GAUAGcgGUCa-CCCGACUGG-UCG- -5'
11968 3' -58.1 NC_003278.1 + 33677 0.67 0.381355
Target:  5'- cGCCCgagaAUauaGCCAaUGccgaacGGCUGGCCGGCa -3'
miRNA:   3'- -UGGGa---UAg--CGGUcAC------CCGACUGGUCG- -5'
11968 3' -58.1 NC_003278.1 + 29754 0.67 0.381355
Target:  5'- gGCCUg--CGCCGcu-GGCUGACCcAGCu -3'
miRNA:   3'- -UGGGauaGCGGUcacCCGACUGG-UCG- -5'
11968 3' -58.1 NC_003278.1 + 27837 0.67 0.381355
Target:  5'- uACCgCUAUaCGCCGcagGGGCUG-CgCGGCa -3'
miRNA:   3'- -UGG-GAUA-GCGGUca-CCCGACuG-GUCG- -5'
11968 3' -58.1 NC_003278.1 + 20515 0.67 0.354798
Target:  5'- cACCCUGaugcgCGCCGucgaGGGC-GGCCAGUu -3'
miRNA:   3'- -UGGGAUa----GCGGUca--CCCGaCUGGUCG- -5'
11968 3' -58.1 NC_003278.1 + 8156 0.67 0.354798
Target:  5'- cGCCC--UCGCCcGUGugcccuGGCUGACCAa- -3'
miRNA:   3'- -UGGGauAGCGGuCAC------CCGACUGGUcg -5'
11968 3' -58.1 NC_003278.1 + 6006 0.67 0.34624
Target:  5'- cAUCCUGUCGCagaAGcgcaUGGGC-GGCCuGCc -3'
miRNA:   3'- -UGGGAUAGCGg--UC----ACCCGaCUGGuCG- -5'
11968 3' -58.1 NC_003278.1 + 23001 0.67 0.337831
Target:  5'- aACCUcaccCGCCAGgauGGC-GACCAGCa -3'
miRNA:   3'- -UGGGaua-GCGGUCac-CCGaCUGGUCG- -5'
11968 3' -58.1 NC_003278.1 + 4687 0.68 0.329572
Target:  5'- cGCCUgGUUGggcuCCAGuUGGGCgaagagGGCCAGCu -3'
miRNA:   3'- -UGGGaUAGC----GGUC-ACCCGa-----CUGGUCG- -5'
11968 3' -58.1 NC_003278.1 + 22676 0.68 0.321462
Target:  5'- uGCCCuUGUCGaCCAGUccGCUGucacuCCAGCc -3'
miRNA:   3'- -UGGG-AUAGC-GGUCAccCGACu----GGUCG- -5'
11968 3' -58.1 NC_003278.1 + 21043 0.68 0.313503
Target:  5'- gUCCUGgcaauugcCGCCGucGUGGcgguGCUGGCCGGCg -3'
miRNA:   3'- uGGGAUa-------GCGGU--CACC----CGACUGGUCG- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.